Targeted protein degradation (via PROTACs, molecular glues, conditional degron tags etc.) youtube.com/shorts/vr_Fe...

Genetic knock-out (KO), knock-down, knock-in, and conditional knock-in youtube.com/shorts/aRCKt...

Although there's always a big excitement in the media when scientists find organisms rewiring the "universal" genetic code, our own mitochondria are like, "been there, done that"... youtube.com/shorts/0_N2Q...

Another book recommendation: Editing Humanity: The CRISPR Revolution and the New Era of Genome Editing by Kevin Davies, 2020 youtube.com/shorts/hXxfL...

Acting "in-cis" vs. "in-trans" youtube.com/shorts/oMLk2...

“New” book recommendation: Breakthrough: The Quest for Life-Changing Medicines by William Pao, 2024 youtube.com/shorts/oyrKs...

On Christmas morning, millions around the world look in their stockings & hoped not to see coal. - yet they’d probably love to see the same element, carbon in a different arrangement - because diamonds and coal are the made up of the same thing!

“CRISPR” as molecular manipulator is a rapidly-expanding toolbox. Here’s a flavoring. . . youtube.com/shorts/_75Fd...

If you’re wanting to do anything even remotely biochemistry-y, even if it’s just being a savvy consumer of cool science, one of my biggest pieces of advice is to learn your amino acid abbreviations (and be able to match them to amino acid properties). youtube.com/shorts/Tnkmq...

A protein “isoform” is just a version or variant of a protein. Having such different forms allows for separate regulation and unique properties best suited for their needed roles. youtube.com/shorts/gVYLj...

Interpreting CLUSTAL format protein alignment files – notation and color scheme youtube.com/shorts/RUgtc...

Don't confuse homology, percent identity, and similarity youtube.com/shorts/WjK9e...

A quick overview of gels & blots youtube.com/shorts/4cYGG...

Blot naming: Southern, western, northern, etc. youtube.com/shorts/B5xuZ...

Helpful tool for generating protein topology & domain diagrams & investigating interfaces: PDBSum! I only learned about this tool recently, but it's really helpful - and free! So thought I'd share a bit about it. YouTube: youtu.be/AFmN4CKU1uE

Last day of my first semester at LMU! Huge thanks to all the great faculty, staff, and students! youtube.com/shorts/pAmOJ...

That plasmid you order for your lab will likely come as an agar stab... youtube.com/shorts/QVMde... bit.ly/plasmid_prep...

In response to students' feedback, etc. this semester, I made a few updates (mostly formatting) that hopefully make this metabolic roadmap clearer and more useful. Hope it can help you too! Bibel, B., & The bumbling biochemist. (2024). Core Metabolic Roadmap. Zenodo. zenodo.org/doi/10.5281/...

#20DaysOfAminoAcids, 2025 edition is officially here! And, this year, I'll be doing it quick style, giving you the rundown of each amino acid's "greatest hits" within the 3 minute limit of YouTube shorts. youtube.com/shorts/EKWPu...

My recommended strategy for metabolic “accounting” problems (where you have to figure out how many NAD(P)(H), FAD(H2), NTP, etc. you generate in the interconversion of 2 molecules) + worked practice problems youtu.be/ds3sJnMr6lk

LB-agar plate-pouring tips for busy people youtube.com/shorts/fan0L...

The enzymes are “numbered” not “lettered” (e.g. EcoRV isn’t an all-electric RV model, it’s EcoR FIVE (learned this the embarrassing way). It tells you it was the 5th restriction enzyme found in the “RY13” strain of E. coli) youtube.com/shorts/g2h8L...

Anaplerotic reactions to TCA put carbons in if you take 'em away (or you can't bring in acetyl-CoA!) youtu.be/vdctxuH-clw

Does the plasmid you ordered have 2 antibiotics listed? One might actually be for cells that plasmid is in (e.g. BL21(DE3)-RIL) which themselves have a plasmid, containing genes for tRNAs for rare codons… youtu.be/uUFuyu0gQ9k

Metabolism doesn’t need to be scary, especially if you approach it with a strategy! metabolicnotes.com/pathwaytips/

Metabolic notes: outlines, figures, videos, etc. all in a centralized location It's a work in progress, but I hope it's helpful! metabolicnotes.com youtube.com/shorts/tH6Rn...

When approaching a metabolic pathway or set of interconnected pathways, it helps to go in with a strategy . . . So, here are some Tips for approaching & interpreting metabolic pathway diagrams youtu.be/65EQViMyMR0

The camera symbol in the right upper corner of PyMOL will allow you to easily export figures. You have multiple options for settings when you click it but the key one is Draw vs Ray. youtu.be/0xwu39JDiOs

Introducing "Metabolic notes from the bumbling biochemist: Making metabolism content meaningful and manageable, not merely menacing memorization." No clue how this domain was still available, but: metabolicnotes.com

Metabolism rocks :)

How we typically (though not technically-correctly) talk about talk about & describe “mutant” proteins & constructs YouTube: youtu.be/mX_gM8kbIiI

Glycolysis + TCA (citric acid cycle) meets M&Ms demo - remember things double! YouTube: youtu.be/N7uCVpR8j6c When thinking about glucose oxidation, don't forget things split in 2 and then you've got to count everything twice once they do!

Tracking carbon through the TCA – why it takes at least 3 cycles to get rid of acetyl-CoA's carbons youtu.be/Sqm8wun5Jbo

One of those "in too deep" videos I made where I allow myself to totally geek out beyond the level of detail that I give my class – this one a deep dive into the chemical logic of the TCA. Thanks for letting me geek out here :) YouTube: youtu.be/UPsd5vbYads

TCA meets M&Ms - citric acid demo - anaplerotic reactions, etc. Because biochem's better with some hands-on activities! youtube.com/shorts/Pr0eg...

Specialized isoforms of glucose transporters & hexokinase let different tissues meet their metabolic needs/roles youtu.be/Fqyf2HpR_Q0

TCA time! Bibel, B., & The bumbling biochemist. (2024). Expanded TCA cycle (TriCarboxylic Acid Cycle, aka Citric Acid Cycle, aka Krebs cycle). Zenodo. doi.org/10.5281/zeno... Feel free to use, but please cite the bumbling biochemist if you do. Thank you and happy learning!

Don't let your gel run away from you! Quick lab tip: use a kimwipe (or other lintless tissue) to prevent your agarose gel from sliding when you image it youtube.com/shorts/CKh1J... more practical lab tips & tricks: bit.ly/lab_tricks_p... & www.youtube.com/playlist?lis...

Honestly not a paid endorsement, but I'm continuously amazed and grateful for the customer support of Reclaim Hosting @www.reclaimhosting.com if any academics are looking for a website host.

Watch out DC – we're coming for ya! One of my favorite parts of working with undergrads is getting to give them their first conference experiences! This year, Alice and hopefully Korina, Liam, and/or Ryan next! @asbmb.bsky.social #ASBMB26

Amino acid and lipid metabolism: an overview, focusing on key points youtu.be/luUpILOx-5k

A quick walk through glycolysis YouTube: youtu.be/vs7wtESXxxw For a longer stroll: youtu.be/trasn7OtJNc

Getting your sample on the AKTA: Sample Loops and Sample Pumps Bottom line: Sample loops are good for small volumes, sample pumps for large volumes, but the pumps are expensive. Superloops are an option for larger volumes without a pump, but they're kinda a pain youtu.be/OkgW7RrVuXA

Let's go on a rapid roadtrip through the heart of human metabolism! Feel free to download and use this map – please cite if you do, thanks! youtu.be/-x8S4SSbn58 Bibel, B., & The bumbling biochemist. (2024). Core Metabolic Roadmap. Zenodo. zenodo.org/doi/10.5281/...

PCR (Polymerase Chain Reaction) overview, design, and troubleshooting tips youtu.be/DIiRT8OuzJ8

In the lab, X-marks the relative concentration! youtu.be/gigGrPm5CyU

Take a hint! Key word roots etc. that will help you figure out lots about biochemical reactions from names of molecules and enzymes alone! youtu.be/OtKkzX15ikw

Uniprot vs. the PDB: Understanding their entries and differences Bottom line: * Each entry in Uniprot corresponds to a protein (chain) * Each entry in the PDB (Protein DataBank) corresponds to a structural model

You finally got your PCR to work? Great! Now, clean up your mess! youtu.be/3FyGRAlbv_8 blog version (text old, video new): bit.ly/spincolumns

If you've got glucose, you've got options! Glycolysis tends to get all the spotlight, but that's just one way to go! (At least until you reach a one-way arrow!) More on metabolism: bit.ly/metabolismgl... & bit.ly/bbmetabolism